Cedric Plot Utilities {cubfits}

Cedric Plot Utilities

Description

This utility function provides basic plots by Cedric.

Usage

  plotPTraces(pMat, ...)
  
  plotExpectedPhiTrace(phiMat, ...)
  
  plotCUB(reu13.df.obs, bMat = NULL, bVec = NULL, phi.bin,
          n.use.samples = 2000, main = "CUB", model.label = c("True Model"),
          model.lty = 1, weightedCenters = TRUE)

  plotTraces(bMat, names.aa, param = c("logmu", "deltaeta", "deltat"),
             main = "AA parameter trace")

Arguments

reu13.df.obs

under development

bVec

a parameter vector

phi.bin

phi values to bin for comparison

n.use.samples

under development

main

Main name for plotTraces

model.label

Name of model

model.lty

line type for model

weightedCenters

if centers are weighted.

names.aa

List of amino acids used for estimation

param

select to plot parameter trace for either log(mu) values or delta t

phiMat

phi matrix from the output of "cubmultichain", "cubsinglechain", "cubfits", "cubappr", or "cubpred"

bMat

b matrix from the output of "cubmultichain", "cubsinglechain", "cubfits", "cubappr", or "cubpred"

pMat

p matrix from the output of "cubmultichain", "cubsinglechain", "cubfits", "cubappr", or "cubpred"

...

other ploting options

Details

under development

Value

under development

Author(s)

Cedric Landerer [e-mail].

References

https://github.com/clandere/cubfits/

See Also

plot

Examples

## Not run: 
suppressMessages(library(cubfits, quietly = TRUE))


## End(Not run)